pins
pins keeps adding a storage backend per release while retiring its original API
Comparison · Analytics
haven vs Seurat
A side-by-side editorial comparison of haven and Seurat — release velocity, themes, recent moves, and the top alternatives to consider.
haven vs Seurat: at a glance
What is haven?
haven's release cadence has narrowed to compiler and R-devel upkeep.
haven is the tidyverse's bridge to SPSS, Stata and SAS files, wrapping the C ReadStat library. The last several releases are almost entirely maintenance: syncing vendored ReadStat and patching ahead of R-devel changes. The most recent substantive user-facing work landed in 2.5.2 and earlier.
What is Seurat?
Seurat's centre of gravity has moved from single cells to spatial data and on-disk matrices
Seurat is the dominant R toolkit for single-cell analysis, and the 5.x line reads as two ongoing projects. One is spatial: successive releases absorb each new 10x output format - Visium HD, Xenium protein data, Space Ranger 4.0 segmentations - and add plotting and selection tools for them. The other is scale, where BPCells on-disk matrices keep gaining support in functions that previously required everything in memory.
haven vs Seurat: editorial side-by-side
haven
0.0ANALYTICS
haven's release cadence has narrowed to compiler and R-devel upkeep.
◆ Current state
haven is the tidyverse's bridge to SPSS, Stata and SAS files, wrapping the C ReadStat library. The last several releases are almost entirely maintenance: syncing vendored ReadStat and patching ahead of R-devel changes. The most recent substantive user-facing work landed in 2.5.2 and earlier.
◆ Where it's heading
Development has shifted from extending the file-format surface to keeping a C dependency compiling against newer toolchains. The deprecation of write_sas() narrowed that surface deliberately, steering users to write_xpt() because the sas7bdat format is undocumented and unsupported upstream.
◆ Prediction
Expect further ReadStat sync releases triggered by compiler or R-devel breakage rather than new format support or writing features.
Seurat
0.0ANALYTICS
Seurat's centre of gravity has moved from single cells to spatial data and on-disk matrices
◆ Current state
Seurat is the dominant R toolkit for single-cell analysis, and the 5.x line reads as two ongoing projects. One is spatial: successive releases absorb each new 10x output format - Visium HD, Xenium protein data, Space Ranger 4.0 segmentations - and add plotting and selection tools for them. The other is scale, where BPCells on-disk matrices keep gaining support in functions that previously required everything in memory.
◆ Where it's heading
Both projects are driven from outside. The spatial work tracks whatever 10x ships, which is why data loaders and coordinate handling get rewritten release after release; the BPCells work tracks dataset sizes that no longer fit in RAM. Clustering and dimensionality reduction, the parts Seurat actually owns, change mainly by exposing more of uwot's and igraph's options rather than by new method development.
◆ Prediction
Expect the next release to absorb whatever instrument output 10x publishes next, and BPCells support to keep spreading into the functions that still densify matrices; the interactive spatial selection tooling looks like the one area with room to grow on its own terms.
Alternatives to haven and Seurat
Other Analytics products tracked by Sparkpulse, ranked by recent ship velocity. Each card links to a full editorial trajectory and lets you pivot into a head-to-head comparison with either haven or Seurat.
tsibble
tsibble shipped one release in five and a half years - the data structure is finished
yardstick
yardstick made fairness metrics a first-class part of tidymodels evaluation
tune
tune extends tuning past the model itself to postprocessors, and adds a second parallel backend
leaflet
leaflet relicensed to MIT and finished migrating off R's retired spatial stack
ggpubr
ggpubr reached 1.0.0 with p-value formatting presets for specific journals
See all haven alternatives → · See all Seurat alternatives →
Recent activity from haven and Seurat
Latest ship moves from both products, interleaved chronologically. ⚡ = editorial spark.
- 1mo agoSeuratFixes zero-count genes in PrepSCTFindMarkers; UMAP init option
- 3mo agoSeuratBPCells gains regression support; ElbowPlot shows variance explained
- 8mo agoSeuratSpace Ranger 4.0 segmentations and interactive cell lasso ⚡
- 9mo agoSeuratXenium protein data; Leiden via igraph, UMAP via umap2
- 1y agohavenhaven 2.5.5 syncs ReadStat for stricter gcc diagnostics
- 1y agoSeuratsctransform and leverage-score calculation refactored for speed
- 1y agoSeuratTest fix for cross-platform clustering variability
- 2y agohavenhaven 2.5.4 patches for an upcoming R-devel change
- 3y agohavenhaven 2.5.3 patches for an upcoming R-devel change
- 3y agohavenhaven 2.5.2 fixes SAS catalog reads and deprecates write_sas()
- 3y agohavenhaven 2.5.1 aligns labelled headers and fixes name repair
- 4y agohavenhaven 2.5.0 adds custom variable widths when writing files
Frequently asked questions
What is the difference between haven and Seurat?
They serve adjacent needs but don't currently overlap on shipped themes. haven and Seurat are shipping at a similar cadence (velocity 0.0 vs 0.0, both within Sparkpulse's "active" band). See the at-a-glance table above for a side-by-side breakdown of velocity, recent sparks, and editorial themes.
Is haven better than Seurat?
Sparkpulse doesn't pick a winner — we score release velocity, not feature parity. haven and Seurat are shipping at a similar cadence (velocity 0.0 vs 0.0, both within Sparkpulse's "active" band). For your specific use case, the alternatives sections above list other Analytics products to evaluate alongside.
What are the best alternatives to haven?
Top haven alternatives in Analytics are ranked by recent ship velocity. Browse the "haven alternatives" section above for the current picks, or visit /alternatives/haven for the full list with editorial commentary on each.
What are the best alternatives to Seurat?
Top Seurat alternatives in Analytics are ranked by recent ship velocity. Browse the "Seurat alternatives" section above for the current picks, or visit /alternatives/seurat for the full list with editorial commentary on each.